Showing : affycoretools • reset
1
vote
1
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332
views
affycoretools - improve error message in annotateEset(ExpressionSet, AffyExpressionPDInfo)
affycoretools
updated 9 months ago by 60k • written 9 months ago by ▴ 180
1
vote
1
reply
282
views
affycoretools - include percent variance explained in plotPCA()
affycoretools
updated 9 months ago by 60k • written 9 months ago by ▴ 180
1
vote
1
reply
256
views
afffycoretools - warnings in mirna2mrna()
affycoretools DBI
updated 9 months ago by 60k • written 9 months ago by ▴ 180
0
votes
3
replies
615
views
ReadAffy does not take into account parameter sampleNames with phenoData object
affycoretools ReadAffy Biobase phenoData affy
updated 20 months ago by 60k • written 20 months ago by • 0
0
votes
2
replies
534
views
oligo package - aggregate transcript expression to gene
affycoretools oligo
21 months ago luca.piacentini • 0
5
votes
5
replies
557
views
Annotation issue while analyzing processed Affymetrix Human Exon 1.0 ST Arrays from Geoquery
affycoretools huex10sttranscriptcluster.db affymetrix Geoquery
updated 2.4 years ago by 60k • written 2.4 years ago by ▴ 800
3
votes
5
replies
640
views
affycoretools::annotateEset(eset, pd.ht.hgu133.plus.pm) return error
affycoretools annotation HT HG-U133+ PM Array
updated 2.7 years ago by 60k • written 2.7 years ago by ▴ 40
1
vote
2
replies
670
views
Inconsistent results when normalizing HTA2.0 arrays at "level=core"
oligo HTA2.0 affycoretools RMA fitProbeLevelModel
updated 3.1 years ago by 60k • written 3.1 years ago by ★ 3.3k
1
vote
5
replies
545
views
Correct annotation R package for human clariom array analysis
clariom oligo affycoretools pd.hugene.2.0.st
updated 3.4 years ago by 60k • written 3.4 years ago by ▴ 800
0
votes
3
replies
1.1k
views
affycoretools::annotateEset unable to find inherited method
affycoretools missing file link annotateEset
updated 4.2 years ago by 60k • written 4.2 years ago by • 0
2
votes
4
replies
721
views
R session terminates when trying to load affycoretools package
affycoretools Rstudio fatal error
updated 4.5 years ago by 60k • written 4.5 years ago by ▴ 10
1
vote
3
replies
749
views
Different microarrays annotations provided by toTable and annotateEset functions
microarray annotation annotationdbi affycoretools annotationtools
updated 4.6 years ago by 60k • written 4.6 years ago by ▴ 60
2
votes
4
replies
1.5k
views
affycoretools annotateEset problem using Clariom D arrays
affycoretools clariom
updated 5.0 years ago by 60k • written 5.0 years ago by ▴ 30
2
votes
3
replies
1.1k
views
Filtering of lowly expressed probes in HTA 2.0 using new pd.hta.2.0 version 3.12.2
pd.hta.2.0 hta2.0 affycoretools
updated 5.0 years ago by 60k • written 5.0 years ago by ▴ 20
6
votes
7
replies
2.3k
views
Appropriate pre-processing pipeline for Human Transcriptome Array HTA 2.0 with oligo for DE analysis
oligo affycoretools hta2.0 affymetrix
updated 3 months ago by • 0 • written 5.4 years ago by ▴ 800
9
votes
6
replies
3.2k
views
Preprocessing of Human Gene 2.0 ST microarrays with oligo R package and annotation options
microarray oligo affycoretools pd.hugene.2.0.st hugene20sttranscriptcluster.db
updated 5.5 years ago by 60k • written 5.5 years ago by ▴ 800
0
votes
3
replies
1.0k
views
Problem after upgrading from affycoretools 1.46.1 to 1.46.3; "vfs customization not available..."
affycoretools
updated 5.6 years ago by 60k • written 5.6 years ago by ★ 2.0k
3
votes
5
replies
945
views
affycoretools' plotPCA no longer can do 3D plot?
affycoretools
updated 7.3 years ago by 60k • written 7.3 years ago by ★ 2.0k
0
votes
4
replies
2.3k
views
Error: could not find function "plotPCA"
GO affycoretools KEGGREST GO affycoretools KEGGREST
updated 8.2 years ago by 37k • written 8.2 years ago by ▴ 50
0
votes
3
replies
1.5k
views
trouble installing affycoretools for R 3.0
VariantAnnotation GO BSgenome affycoretools BSgenome VariantAnnotation ggbio GO BSgenome
updated 9.4 years ago by 60k • written 9.4 years ago by ★ 2.0k
0
votes
0
replies
1.0k
views
identifying drosophila miRNA targets
miRNA drosophila2 probe affy convert affycoretools microRNA miRNA drosophila2 probe affy
9.4 years ago Fiona ▴ 70
0
votes
7
replies
1.1k
views
vennSelect error
GO hgu133a2 yeast2 affy affycoretools GO hgu133a2 yeast2 affy affycoretools
updated 11.2 years ago by 60k • written 11.2 years ago by ▴ 350
0
votes
1
reply
771
views
why kOverA function has 6
affycoretools affycoretools
updated 11.3 years ago by ▴ 20 • written 11.3 years ago by ★ 2.0k
0
votes
0
replies
807
views
quality control of affy Chips for miRNA
miRNA cdf probe affy simpleaffy affyQCReport affycoretools arrayQualityMetrics miRNA cdf
11.5 years ago Assa Yeroslaviz ★ 1.5k
0
votes
1
reply
739
views
quality control of affy Chips for miRNA
miRNA cdf affy simpleaffy affyQCReport affycoretools miRNA cdf affy simpleaffy
updated 11.5 years ago by 60k • written 11.5 years ago by ★ 1.5k
0
votes
3
replies
1.1k
views
Help in installing affycoretools
affycoretools affycoretools
updated 12.7 years ago by 25k • written 12.8 years ago by ▴ 350
0
votes
0
replies
816
views
Annotation.db: how automatically call a mapping?
Annotation GO moe430a affy limma annaffy affycoretools Annotation GO moe430a affy limma
13.1 years ago James W. MacDonald 60k
0
votes
4
replies
3.3k
views
Extracting genes within venn diagram
limma affycoretools limma affycoretools
13.8 years ago Celine Carret ▴ 220
0
votes
0
replies
750
views
problem installing affycoretools in R in linux environment
GO biomaRt affycoretools GO biomaRt affycoretools
13.9 years ago James W. MacDonald 60k
0
votes
2
replies
1.3k
views
problem installing affycoretools in R in linux environment
GO affycoretools GO affycoretools
updated 13.9 years ago by 60k • written 13.9 years ago by ▴ 80
0
votes
0
replies
788
views
problem installing affycoretools in R in linux environment
GO Cancer biomaRt affycoretools GO Cancer biomaRt affycoretools
13.9 years ago rgentleman ★ 5.5k
0
votes
3
replies
1.0k
views
affycoretools repost
GO limma affycoretools GO limma affycoretools
updated 14.2 years ago by 60k • written 14.2 years ago by ▴ 160
0
votes
1
reply
780
views
affycoretools question
GO limma affycoretools GO limma affycoretools
updated 14.2 years ago by 60k • written 14.2 years ago by ▴ 160
0
votes
10
replies
1.0k
views
Problem with invalid GO term in HyperGResult object - NOT solved
GO Cancer GOstats affycoretools GO Cancer GOstats affycoretools
updated 14.9 years ago by ★ 2.2k • written 14.9 years ago by ★ 7.4k
0
votes
3
replies
817
views
intended behavior of plotPCA and AffyBatch objects?
affy affycoretools affy affycoretools
updated 15.3 years ago by 60k • written 15.3 years ago by ★ 2.2k
0
votes
3
replies
1.3k
views
Can't get RCurl...
GO Survival annotate genefilter affy graph limma GOstats biomaRt Category affycoretools
updated 15.4 years ago by 60k • written 15.4 years ago by ★ 2.2k
0
votes
2
replies
1.1k
views
can't load affycoretools because GOstats is broken. Can I load affycoretools without dependencies to use some functions?
GO Survival Biobase genefilter affy limma RBGL GOstats Category affyio affycoretools GO
15.5 years ago Mark W Kimpel ▴ 830
0
votes
1
reply
560
views
can't load affycoretools because GOstats is broken. Can I load affycoretools without dependencies to use some functions?
affycoretools affycoretools
updated 15.5 years ago by 60k • written 15.5 years ago by ▴ 830
0
votes
5
replies
1.1k
views
error coercing an exprSet to ExpressionSet
GO cdf Biobase annotate multtest affy limma RBGL GOstats Category affycoretools GO cdf
updated 15.8 years ago by ★ 7.4k • written 15.8 years ago by ▴ 890
0
votes
0
replies
717
views
help with RankProd plaase
GO Survival cdf genefilter multtest affy limma RankProd Category affycoretools GO cdf
15.8 years ago Kimpel, Mark W ▴ 890
0
votes
3
replies
3.2k
views
PCA-prcomp() versus plotPCA
affycoretools affycoretools
updated 15.8 years ago by 60k • written 15.8 years ago by ▴ 320
0
votes
0
replies
842
views
question_gene list from venn diagram limma function for two color array data
Microarray Annotation Cancer GOstats affycoretools Microarray Annotation Cancer GOstats
15.8 years ago James W. MacDonald 60k
0
votes
2
replies
875
views
problem with latest version of graph
GO annotate genefilter multtest affy graph Rgraphviz RBGL GOstats affyio affycoretools
16.2 years ago Kimpel, Mark W ▴ 890
0
votes
1
reply
650
views
affycoretools limma2annaffy fold change output question
affycoretools affycoretools
updated 16.3 years ago by 60k • written 16.3 years ago by ▴ 890
0
votes
6
replies
1.1k
views
RNA degradation tends & options for analysis
affy limma gcrma affycoretools affy limma gcrma affycoretools
updated 16.5 years ago by 60k • written 16.5 years ago by ▴ 20
0
votes
2
replies
732
views
justRMA using incorrect default cdf
GO Survival rat2302 cdf annotate genefilter affy limma affycoretools GO Survival cdf
16.5 years ago Kimpel, Mark W ▴ 890
46 results • Page 1 of 1
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Answer: Design and contrast matrices for analyzing the effect of two factors of interest by Gordon Smyth 46k
> In a typical regression, I would just add them to the model when estimating my coefficients of interest Why would you not do the same wi…
Comment: TPM normalization starting with read counts by Gordon Smyth 46k
> So you think my method in TPM normalization that I introduced above is not good? You have computed RPKMs, not TPMs. None of my software …
Comment: error in package GenVisR while installing by 堃 • 0
Package ‘FField’ was removed from the CRAN repository.[enter link description here][1] I installed FField by using remotes::install_github…
Comment: DESeq 2 failes to load by Ruggero • 0
This solved the error, in case someone else is having compilation errors from installing RSQllite: install.packages('RSQLite', repos='http…
Comment: pathview says my nonmodel species is unknown: "species invalid" by Guido Hooiveld ★ 3.3k
A while ago a faced the same for another non-model organism. I was able to get it working using a 'hack'. This hack is nothing more than m…
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Answer: How to remove dendrogram from pheatmaps?
A: conceptual question about FDR, FDR adjusted p-value and q-value
A: conceptual question about FDR, FDR adjusted p-value and q-value
A: How to select summit size for histone ChiP-Seq in Diffbind
Answer: Unable to download supplementary files from GSE146963 using GEOquery
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